Rroxscaffold_2G00084690

ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000002
OG0020342
Physical Location & Seq
Reverse (-)
7189971 .. 7190782
812 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_2G00084690.1

Sequence Viewer

Length: 696 bp
ATGGAATGCACACGTCCCCGTAGGGTTAAGATGTGTGCTTGGAAGGCTTGCATAGACATTCTCCCTACTCGAGTTTATCTCGGCGCAAGGCTATGGCTGCGAAAGATCGAGGCTGTTTTGCTTTGCACTTATTCTCTAGAATCTGCGCTGCATGTCTTGAAGGATTGCCCTTATGCAAGCGTGTATGGTTCTCTAGTGCTTTGGCTTTACGCGCTTACGAGTTGCAGTCCCAACACCATTAAGGATTGGTTATTACCTCTCTCTAAAACCTTGCCGACTTCACGGTTGCAATGCTCGCTGATGGTTCTTTGGTCAATGCGGAAAGAGCGGCATTCTCTTCGTTGGGGAAAGAGGCGAAAGAAGGGTTGGGTGAAGGTTAATGTGGATGGGGCTTTCGATGTTGCTTGCGCTGCGGCGGGGATCGGAGTGATTCTTCTTGACCGGAATGGCGATTTCCATGGCACATTCTCTAAGAAAATAGGTGGTCTGTTTTACGGCGTAGATGCCGAGGCGGTGGCATTGCGTGAAGGTGTTCGCTTGGCCCTCGACCGTGGCTACCACAAGGTATGGTTCGAAAGTGACGCATTGAACACTATTGTGGCTCGCTGCAACATAGAACATCGGAATGACGATGATGATAGAGAAATTTATACGAGTGATAGTAGTGATAGTGACACCGAAAATGATAGCGAGTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
RVT_1 RVT_3 zf-RVT

Protein Analysis

231

Amino Acids

26.19

Weight (kDa)

8.54

Isoelectric Point (pI)

54.86

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RVT_3 PF13456 127 - 199 2.4e-13 Reverse transcriptase-like
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Orthologous Genes (Group: OG0020342)

Species Orthologous Gene IDs
fragaria_vesca FvH4_6g47542
pyrus_communis pycom03g14340
rosa_laevigata RLG00000021637
rosa_roxburghii Rroxscaffold_2G00084690
rosa_samantha Rh2AG590700 Rh2DG613500

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccBSI CCGCTC 1 cut(s) 328
AccII CGCG 1 cut(s) 212
AciI CCGC 5 cut(s) 319, 328, 413, 416, 512
AclWI GGATC 1 cut(s) 428
AcsI RAATTY 1 cut(s) 645
AflIII ACRYGT 1 cut(s) 11
AgsI TTSAA 2 cut(s) 160, 589
AjiI CACGTC 1 cut(s) 14
AjuI GAANNNNNNNTTGG 2 cut(s) 349, 381
AleI CACNNNNGTG 1 cut(s) 596
AlwI GGATC 1 cut(s) 428
Ama87I CYCGRG 1 cut(s) 69
AoxI GGCC 1 cut(s) 540
ApeKI GCWGC 4 cut(s) 97, 148, 410, 606
ApoI RAATTY 1 cut(s) 645
Asp700I GAANNNNTTC 1 cut(s) 531
AspLEI GCGC 4 cut(s) 86, 148, 214, 410
AspS9I GGNCC 1 cut(s) 541
AsuHPI GGTGA 1 cut(s) 382
AsuII TTCGAA 1 cut(s) 573
AvaI CYCGRG 1 cut(s) 69
BbvI GCAGC 4 cut(s) 84, 135, 397, 593
BccI CCATC 2 cut(s) 295, 380
BceAI ACGGC 1 cut(s) 511
BcgI CGANNNNNNTGC 2 cut(s) 320, 354
BfaI CTAG 2 cut(s) 137, 194
BisI GCNGC 6 cut(s) 98, 149, 329, 411, 414, 607
BlsI GCNGC 6 cut(s) 99, 150, 330, 412, 415, 608
BmeT110I CYCGRG 1 cut(s) 69
BmgBI CACGTC 1 cut(s) 14
BmgT120I GGNCC 1 cut(s) 541
BmsI GCATC 1 cut(s) 493
BplI GAGNNNNNCTC 2 cut(s) 63, 95
Bpu14I TTCGAA 1 cut(s) 573
BsaJI CCNNGG 3 cut(s) 457, 507, 550
BsaWI WCCGGW 1 cut(s) 441
Bse3DI GCAATG 2 cut(s) 296, 518
BseDI CCNNGG 3 cut(s) 457, 507, 550
BseGI GGATG 1 cut(s) 391
BseMI GCAATG 2 cut(s) 296, 518
BseXI GCAGC 4 cut(s) 84, 135, 397, 593
Bsh1236I CGCG 1 cut(s) 212
Bsh1285I CGRYCG 1 cut(s) 550
BshFI GGCC 1 cut(s) 542
BsiEI CGRYCG 1 cut(s) 550
BsiHKCI CYCGRG 1 cut(s) 69
BsiSI CCGG 1 cut(s) 442
BslFI GGGAC 1 cut(s) 213
BsmFI GGGAC 1 cut(s) 213
BsmI GAATGC 2 cut(s) 11, 331
BsnI GGCC 1 cut(s) 542
BsoBI CYCGRG 1 cut(s) 69
Bsp119I TTCGAA 1 cut(s) 573
Bsp143I GATC 2 cut(s) 105, 420
Bsp19I CCATGG 1 cut(s) 457
BspACI CCGC 5 cut(s) 319, 328, 413, 416, 512
BspANI GGCC 1 cut(s) 542
BspFNI CGCG 1 cut(s) 212
BspPI GGATC 1 cut(s) 428
BspT104I TTCGAA 1 cut(s) 573
BsrBI CCGCTC 1 cut(s) 328
BsrDI GCAATG 2 cut(s) 296, 518
BssECI CCNNGG 3 cut(s) 457, 507, 550
BssMI GATC 2 cut(s) 105, 420
BssT1I CCWWGG 1 cut(s) 457
Bst4CI ACNGT 2 cut(s) 285, 551
Bst6I CTCTTC 1 cut(s) 342
BstBI TTCGAA 1 cut(s) 573
BstC8I GCNNGC 5 cut(s) 49, 178, 296, 406, 604
BstDEI CTNAG 1 cut(s) 471
BstDSI CCRYGG 2 cut(s) 457, 550
BstF5I GGATG 1 cut(s) 391
BstFNI CGCG 1 cut(s) 212
BstHHI GCGC 4 cut(s) 86, 148, 214, 410
BstKTI GATC 2 cut(s) 108, 423
BstMBI GATC 2 cut(s) 105, 420
BstMCI CGRYCG 1 cut(s) 550
BstMWI GCNNNNNNNGC 6 cut(s) 44, 97, 211, 295, 325, 410
BstNSI RCATGY 1 cut(s) 155
BstUI CGCG 1 cut(s) 212
BstV1I GCAGC 4 cut(s) 84, 135, 397, 593
BsuRI GGCC 1 cut(s) 542
BtgI CCRYGG 2 cut(s) 457, 550
BtrI CACGTC 1 cut(s) 14
BtsCI GGATG 1 cut(s) 391
Cac8I GCNNGC 5 cut(s) 49, 178, 296, 406, 604
CfoI GCGC 4 cut(s) 86, 148, 214, 410
Cfr13I GGNCC 1 cut(s) 541
CseI GACGC 1 cut(s) 590
CviAII CATG 2 cut(s) 152, 458
CviJI RGCY 9 cut(s) 47, 91, 97, 113, 205, 392, 542, 555, 602
CviKI_1 RGCY 9 cut(s) 47, 91, 97, 113, 205, 392, 542, 555, 602
DdeI CTNAG 1 cut(s) 471
DpnI GATC 2 cut(s) 107, 422
DpnII GATC 2 cut(s) 105, 420
Eam1104I CTCTTC 1 cut(s) 342
EarI CTCTTC 1 cut(s) 342
Eco130I CCWWGG 1 cut(s) 457
Eco88I CYCGRG 1 cut(s) 69
EcoT14I CCWWGG 1 cut(s) 457
ErhI CCWWGG 1 cut(s) 457
FaeI CATG 2 cut(s) 155, 461
FaiI YATR 9 cut(s) 53, 94, 153, 174, 186, 459, 568, 614, 651
FaqI GGGAC 1 cut(s) 213
FatI CATG 2 cut(s) 151, 457
FauI CCCGC 1 cut(s) 409
Fnu4HI GCNGC 6 cut(s) 98, 149, 329, 411, 414, 607
FokI GGATG 1 cut(s) 398
Fsp4HI GCNGC 6 cut(s) 98, 149, 329, 411, 414, 607
FspBI CTAG 2 cut(s) 137, 194
GlaI GCGC 4 cut(s) 85, 147, 213, 409
GluI GCNGC 6 cut(s) 98, 149, 329, 411, 414, 607
HaeIII GGCC 1 cut(s) 542
HapII CCGG 1 cut(s) 442
HgaI GACGC 1 cut(s) 590
HhaI GCGC 4 cut(s) 86, 148, 214, 410
Hin1II CATG 2 cut(s) 155, 461
Hin6I GCGC 4 cut(s) 84, 146, 212, 408
HinP1I GCGC 4 cut(s) 84, 146, 212, 408
HinfI GANTC 2 cut(s) 140, 430
HpaII CCGG 1 cut(s) 442
HphI GGTGA 1 cut(s) 382
Hpy188I TCNGA 2 cut(s) 425, 624
Hpy188III TCNNGA 3 cut(s) 137, 157, 437
HpyAV CCTTC 5 cut(s) 37, 154, 355, 367, 521
HpyCH4III ACNGT 2 cut(s) 285, 551
HpyCH4IV ACGT 1 cut(s) 13
HpyCH4V TGCA 8 cut(s) 9, 51, 126, 151, 176, 225, 289, 609
HpyF10VI GCNNNNNNNGC 6 cut(s) 44, 97, 211, 295, 325, 410
HpyF3I CTNAG 1 cut(s) 471
HpySE526I ACGT 1 cut(s) 13
Hsp92II CATG 2 cut(s) 155, 461
HspAI GCGC 4 cut(s) 84, 146, 212, 408
Kzo9I GATC 2 cut(s) 105, 420
LpnPI CCDG 1 cut(s) 455
Lsp1109I GCAGC 4 cut(s) 84, 135, 397, 593
LweI GCATC 1 cut(s) 493
MaeI CTAG 2 cut(s) 137, 194
MaeII ACGT 1 cut(s) 13
MaeIII GTNAC 2 cut(s) 578, 671
MalI GATC 2 cut(s) 107, 422
MbiI CCGCTC 1 cut(s) 328
MboI GATC 2 cut(s) 105, 420
MboII GAAGA 2 cut(s) 329, 425
MluCI AATT 1 cut(s) 645
MnlI CCTC 5 cut(s) 103, 267, 345, 502, 554
MroXI GAANNNNTTC 1 cut(s) 531
MseI TTAA 3 cut(s) 27, 240, 378
MslI CAYNNNNRTG 2 cut(s) 596, 624
MspI CCGG 1 cut(s) 442
Mva1269I GAATGC 2 cut(s) 11, 331
MvnI CGCG 1 cut(s) 212
MwoI GCNNNNNNNGC 6 cut(s) 44, 97, 211, 295, 325, 410
NcoI CCATGG 1 cut(s) 457
NdeII GATC 2 cut(s) 105, 420
NlaIII CATG 2 cut(s) 155, 461
NmeAIII GCCGAG 2 cut(s) 60, 532
NmuCI GTSAC 2 cut(s) 578, 671
NspI RCATGY 1 cut(s) 155
NspV TTCGAA 1 cut(s) 573
OliI CACNNNNGTG 1 cut(s) 596
PaeR7I CTCGAG 1 cut(s) 69
PctI GAATGC 2 cut(s) 11, 331
PdmI GAANNNNTTC 1 cut(s) 531
PfeI GAWTC 2 cut(s) 140, 430
PkrI GCNGC 6 cut(s) 99, 150, 330, 412, 415, 608
PspPI GGNCC 1 cut(s) 541
PspXI VCTCGAGB 1 cut(s) 69
RseI CAYNNNNRTG 2 cut(s) 596, 624
SaqAI TTAA 3 cut(s) 27, 240, 378
SatI GCNGC 6 cut(s) 98, 149, 329, 411, 414, 607
Sau3AI GATC 2 cut(s) 105, 420
Sau96I GGNCC 1 cut(s) 541
SetI ASST 7 cut(s) 16, 259, 272, 378, 484, 532, 567
SfaNI GCATC 1 cut(s) 493
Sfr274I CTCGAG 1 cut(s) 69
SfuI TTCGAA 1 cut(s) 573
SlaI CTCGAG 1 cut(s) 69
SmiMI CAYNNNNRTG 2 cut(s) 596, 624
SmlI CTYRAG 1 cut(s) 69
SmoI CTYRAG 1 cut(s) 69
Sse9I AATT 1 cut(s) 645
SsiI CCGC 5 cut(s) 319, 328, 413, 416, 512
SspMI CTAG 2 cut(s) 137, 194
StyI CCWWGG 1 cut(s) 457
TaaI ACNGT 2 cut(s) 285, 551
TaiI ACGT 1 cut(s) 16
TaqI TCGA 5 cut(s) 70, 108, 396, 546, 573
TasI AATT 1 cut(s) 645
TauI GCSGC 2 cut(s) 331, 416
TfiI GAWTC 2 cut(s) 140, 430
Tru1I TTAA 3 cut(s) 27, 240, 378
Tru9I TTAA 3 cut(s) 27, 240, 378
TseFI GTSAC 2 cut(s) 578, 671
TseI GCWGC 4 cut(s) 97, 148, 410, 606
Tsp45I GTSAC 2 cut(s) 578, 671
XapI RAATTY 1 cut(s) 645
XbaI TCTAGA 1 cut(s) 136
XceI RCATGY 1 cut(s) 155
XhoI CTCGAG 1 cut(s) 69
XmnI GAANNNNTTC 1 cut(s) 531
XspI CTAG 2 cut(s) 137, 194
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.